STAG: Standard tools for Acroporid Genotyping
Current genotyping methods are restricted to a few labs creating a significant bottleneck to conservation projects. Recent identification of single nucleotide variants (SNVs) between species and populations allows for standardized SNV genotyping at comparable cost. We are developing SNV probes and an automated analysis pipeline for multi-locus genotyping to be used to inform management recommendations and standing genetic diversity.
Download poster on project presented at Society for Integrative Biology Annual Meeting 2018.
Caribbean Acroporid Genomes and Linkage Maps
Draft genome assemblies available here!
Construction of de novo genome assemblies and linkage maps of the Caribbean Acroporids, A. palmata and A. cervicornis are underway. These resources will allow us to explore patterns of introgression between these species and their hybrid, A. prolifera. (See associated work on Coral Hybridization)
The data provided through this project constitutes the collaborative work of the myself and the Baums's Lab at Pennsylvania State University, Webb Miller at Pennsylvania State University and Fogarty's Lab at NOVA Southeastern University.
Through a collaboration with Dr. Eli Meyer at Oregon State University, the Weis Lab sequenced the transcriptomes of the anemone A. elegantissma, and corals F. scutaria, M. cavernosa and S. hystrix. In the analysis of these transcriptomes, we constructed one of the first cnidarian phylogenomic trees with currently available "omic" data.
See: Kitchen et al. 2015, G3
A searchable database for these resources can be found at : http://people.oregonstate.edu/~meyere/data.html